Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,499,566	A→G	S258P (TCC→CCC)	ydcO ←	BenE family transporter YdcO

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,499,566	0	A	G	100.0%	13.4 / NA	6	S258P (TCC→CCC)	ydcO	BenE family transporter YdcO
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (3/3);  total (3/3)

TGATCTTTATCCGGATGCGCTTCCGGGCTTTGGCAAATAGCCGCGGTGATTGCCGCAATACCGACGGAATAAACGCCGAAAGGGGAAAAAACCAGTGCCAGCAATCCAGTAAATACAATTAATGGCGAAACAGG  >  NZ_CP009273/1499481‑1499614                                                                                      |                                                 tGATCTTTATCCGGATGCGCTTCCGGGCTTTGGCAAATAGCCGCGGTGATTGCCGCAATACCGACGGAATAAACGCCGAAAGGGGgaaaa                                              >  2:320243/1‑90 (MQ=255)              gATGCGCTTCCGGGCTTTGGCAAATAGCCGCGGTGATTGCCGCAACACCGACGGAATAAACGCCGAAAGGGGGAAAAACCAGTGCCAGCa                                 >  2:117576/1‑90 (MQ=255)                          ggCTTTGGCAAATAGCCGCGGTGATTGCCGCAATACCGACGGAATAAACGCCGAAAGGGGGAAAAACCAGTGCCAGCAATCCAGTAAATa                     <  1:320243/90‑1 (MQ=255)                                          cgcgGTGATTGCCGCAATACCGACGGAATAAACGCCGAAAGGGGGAAAAACCAGTGCCAGCAATCCAGTAAATACAATTAATGGCGAAAc     <  1:45972/90‑1 (MQ=255)                                          cgcgGTGATTGCCGCAATACCGACGGAATAAACGCCGAAAGGGGGAAAAACCAGTGCCAGCAATCCAGTAAATACAATTAATGGCGAAAc     >  2:28808/1‑90 (MQ=255)                                             ggTGATTGCCGCAATACCGACGGAATAAACGCCGAAAGGTGGAAAAACCAGTGCCAGCAATCCAGTAAATACAATTAATTGGGAAACAgg  >  2:80863/1‑90 (MQ=255)                                             ggTGATTGCCGCAATACCGACGGAATAAACGCCGAAAGGGGGAAAAACCAGTGCCAGCAATCCAGTAAATACAATTAATGGCGAAACAgg  <  2:104320/90‑1 (MQ=255)                                                                                      |                                                 TGATCTTTATCCGGATGCGCTTCCGGGCTTTGGCAAATAGCCGCGGTGATTGCCGCAATACCGACGGAATAAACGCCGAAAGGGGAAAAAACCAGTGCCAGCAATCCAGTAAATACAATTAATGGCGAAACAGG  >  NZ_CP009273/1499481‑1499614

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑